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Integrated analysis of gut microbiome and host immune responses in COVID-19

Frontiers of Medicine 2022, Volume 16, Issue 2,   Pages 263-275 doi: 10.1007/s11684-022-0921-6

Abstract: Emerging evidence indicates that the gut microbiome contributes to the host immune response to infectiousHere, to explore the role of the gut microbiome in the host immune responses in COVID-19, we conductedWe found that the diversity of the gut microbiome was reduced in severe/critical COVID-19 cases comparedIn addition, an integrative analysis of gut microbiome and the transcriptome of peripheral blood mononuclear

Keywords： COVID-19     SARS-COV-2     gut microbiome     immune response    

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Understanding building-occupant-microbiome interactions toward healthy built environments: A review

Shuai Li, Zhiyao Yang, Da Hu, Liu Cao, Qiang He

Frontiers of Environmental Science & Engineering 2021, Volume 15, Issue 4, doi: 10.1007/s11783-020-1357-3

Abstract: Abstract • The built environment, occupants, and microbiomes constitute an integrated ecosystem. • This review summarizes research progress which has focused primarily on microbiomes. • Critical research needs include studying impacts of occupant behaviors on microbiomes. Built environments, occupants, and microbiomes constitute a system of ecosystems with extensive interactions that impact one another. Understanding the interactions between these systems is essential to develop strategies for effective management of the built environment and its inhabitants to enhance public health and well-being. Numerous studies have been conducted to characterize the microbiomes of the built environment. This review summarizes current progress in understanding the interactions between attributes of built environments and occupant behaviors that shape the structure and dynamics of indoor microbial communities. In addition, this review also discusses the challenges and future research needs in the field of microbiomes of the built environment that necessitate research beyond the basic characterization of microbiomes in order to gain an understanding of the causal mechanisms between the built environment, occupants, and microbiomes, which will provide a knowledge base for the development of transformative intervention strategies toward healthy built environments. The pressing need to control the transmission of SARS-CoV-2 in indoor environments highlights the urgency and significance of understanding the complex interactions between the built environment, occupants, and microbiomes, which is the focus of this review.

Keywords： Microbiome     Built Environment     Occupant     Health    

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Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Frontiers of Environmental Science & Engineering 2022, Volume 16, Issue 5, doi: 10.1007/s11783-022-1543-6

Abstract:

● Riverine microbiomes exhibited hyperlocal variation within a single transect.

Keywords： Microbiome     Freshwater     Taxon accumulation curve     Community assembly    

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Human microbiome and prostate cancer development: current insights into the prevention and treatment

Solmaz Ohadian Moghadam, Seyed Ali Momeni

Frontiers of Medicine 2021, Volume 15, Issue 1,   Pages 11-32 doi: 10.1007/s11684-019-0731-7

Abstract: The human microbiome may influence prostate cancer development.several studies have focused on the effect of prostate infections as well as the composition of the human microbiomeIn healthy individuals, the microbiome plays a crucial role in the maintenance of homeostasis of bodyFurthermore, we discuss strategies to target the microbiome for risk assessment, prevention, and treatment

Keywords： microbiome     prostate cancer     prevention     treatment     molecular pathological epidemiology (MPE)     biomarker    

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Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Frontiers of Environmental Science & Engineering 2022, Volume 16, Issue 6, doi: 10.1007/s11783-022-1560-5

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Comparative analysis of impact of human occupancy on indoor microbiomes

Frontiers of Environmental Science & Engineering 2021, Volume 15, Issue 5, doi: 10.1007/s11783-020-1383-1

Abstract:

• Exposure to indoor microbiomes is a public health concern in educational facilities.

Keywords： Built environment     Indoor microbiome     Occupant     Building     Sequencing    

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Antibiotics-mediated intestinal microbiome perturbation aggravates tacrolimus-induced glucose disorders

Yuqiu Han, Xiangyang Jiang, Qi Ling, Li Wu, Pin Wu, Ruiqi Tang, Xiaowei Xu, Meifang Yang, Lijiang Zhang, Weiwei Zhu, Baohong Wang, Lanjuan Li

Frontiers of Medicine 2019, Volume 13, Issue 4,   Pages 471-481 doi: 10.1007/s11684-019-0686-8

Abstract: The altered components of gut microbiome and predicted microbial functional profiles showed significantIn conclusion, ABX aggravated the effect of TAC on the microbiome and its metabolic capacities, whichThese findings suggest that the ABX-altered microbiome can amplify the diabetogenic effect of TAC and

Keywords： antibiotics     tacrolimus     glucose disorders     microbiome    

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Emerging Trends for Microbiome Analysis: From Single-Cell Functional Imaging to Microbiome Big Data

Jian Xu, Bo Ma, Xiaoquan Su, Shi Huang, Xin Xu, Xuedong Zhou, Wei Huang, Rob Knight

Engineering 2017, Volume 3, Issue 1,   Pages 66-70 doi: 10.1016/J.ENG.2017.01.020

Abstract:

Method development has always been and will continue to be a core driving force of microbiome scienceIn this perspective, we argue that in the next decade, method development in microbiome analysis willdata analysis to microbiome data science.Some of the recent method-development efforts by Chinese microbiome scientists and their internationalIt is our belief that the China Microbiome Initiative has the opportunity to deliver outstanding &ldquo

Keywords： Microbiome     Methoddevelopment     Single-cell analysis     Big data     China Microbiome Initiative    

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Coupling of the chemical niche and microbiome in the rhizosphere: implications from watermelon grafting

Yang SONG, Chen ZHU, Waseem RAZA, Dongsheng WANG, Qiwei HUANG, Shiwei GUO, Ning LING, Qirong SHEN

Frontiers of Agricultural Science and Engineering 2019, Volume 6, Issue 2,   Pages 206-206 doi: 10.15302/J-FASE-2018234

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Alterations in the Gut Microbiome in Liver Recipients with Post-transplant Diabetes Mellitus

Qi Ling,Yuqiu Han,Yue Ma,Xiaosen Wang,Zheng Zhu,Jingyu Wang,Jiaying Cao,Lin Xiaohan,Jun Wang,Baohong Wang,

Engineering doi: 10.1016/j.eng.2023.09.006

Abstract: high-throughput shotgun metagenomics sequencing and metabolomics profiling, we characterized the intestinal microbiomeIn summary, the faecal microbiome and metabolome differed between PTDM and non-PTDM patients, which were

Keywords： Post-transplant diabetes mellitus     Tacrolimus     Metagenomics     Metabolomics    

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Intestinal Epithelial Axin1 Deficiency Protects Against Colitis via Altered Gut Microbiota

Shari Garrett,Yongguo Zhang,Yinglin Xia,Jun Sun,

Engineering doi: 10.1016/j.eng.2023.06.007

Abstract: These data suggest non-colitogenic effects driven by the gut microbiome.Further mechanistic studies using specific Axin1 mutations elucidating how Axin1 modulates the microbiome

Keywords： Axin1     Bacteria     Microbiome inflammation     Inflammatory bowel disease     Immunity     Microbiome     Paneth cells     Akkermansia    

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Changes in bulk soil affect the disease-suppressive rhizosphere microbiome against Fusarium wilt disease

Lin FU, Wu XIONG, Francisco DINI-ANDREOTE, Beibei WANG, Chengyuan TAO, Yunze RUAN, Zongzhuan SHEN, Rong LI, Qirong SHEN

Frontiers of Agricultural Science and Engineering 2020, Volume 7, Issue 3,   Pages 307-316 doi: 10.15302/J-FASE-2020328

Abstract: results indicate that disease suppression was mediated by the structure of a suppressive rhizosphere microbiomeOverall microbiome suppressiveness was primarily related to a particular set of enriched bacterial taxa

Keywords： agricultural practice     bulk soil     disease suppression     rhizosphere ecology    

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The Phragmites Root-Inhabiting Microbiome: A Critical Review on Its Composition and Environmental Review

Donglin Wang, Yaohui Bai, Jiuhui Qu

Engineering 2022, Volume 9, Issue 2,   Pages 42-50 doi: 10.1016/j.eng.2021.05.016

Abstract: current understanding of the basic composition of the <i>Phragmites</i> root-inhabiting microbiomeand the complex functions of each member of this microbiome remains incomplete, especially regardingsummarizes the advances that have been made in ecological and biochemical research on the Phragmites root microbiomeFurthermore, culture-based methods have helped to clarify the functions of the microbiome, such as metalBased on the current understanding of the <i>Phragmites</i> root microbiome, we propose that

Keywords： Phragmites     Rhizosphere microbiome     Microbial community composition     Pollution remediation     Constructed    

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Microbiome Engineering: A Promising Approach to Improve Coral Health Review

Jie Li, Qingsong Yang, Junde Dong, Michael Sweet, Ying Zhang, Cong Liu, Yanying Zhang, Xiaoyu Tang, Wenqian Zhang, Si Zhang

Engineering 2023, Volume 28, Issue 9,   Pages 108-119 doi: 10.1016/j.eng.2022.07.010

Abstract: use this knowledge to eventually improve coral health, interest in coral microbiology and the coral microbiomeIn this review, we summarize the role of the coral microbiome in maintaining a healthy metaorganism byWe explore the concept of coral microbiome engineering, that is, precise and controlled manipulationof the coral microbiome to aid and enhance coral resilience and tolerance in the changing oceans.Although coral microbiome engineering is clearly in its infancy, several recent breakthroughs indicate

Keywords： Coral reef restoration     Coral holobiont     Beneficial microorganisms for corals     Bleaching     Microbiome    

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Temporal Dynamics and Performance Association of the Tetrasphaera-Enriched Microbiome for Enhanced Article

Hui Wang, Yubo Wang, Guoqing Zhang, Ze Zhao, Feng Ju

Engineering 2023, Volume 29, Issue 10,   Pages 168-178 doi: 10.1016/j.eng.2022.10.016

Abstract: However, it is unclear how Tetrasphaera PAOs are selectively enriched in the context of the EBPR microbiomeIn this study, an EBPR microbiome enriched with Tetrasphaera (accounting for 40% of 16S sequencesThe microbiome showed enhanced nutrient removal (phosphorus removal ∼85% and nitrogen removal &simcompetitors Brevundimonas and Paracoccus, facilitating the establishment of the EBPR microbiomeThis study provides new knowledge on the establishment of a Tetrasphaera-enriched microbiome

Keywords： biological phosphorus removal (EBPR)     Polyphosphate-accumulating organisms (PAOs)     Tetrasphaera     Microbiome    

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Title Author Date Type Operation

Integrated analysis of gut microbiome and host immune responses in COVID-19

Journal Article

Understanding building-occupant-microbiome interactions toward healthy built environments: A review

Shuai Li, Zhiyao Yang, Da Hu, Liu Cao, Qiang He

Journal Article

Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Journal Article

Human microbiome and prostate cancer development: current insights into the prevention and treatment

Solmaz Ohadian Moghadam, Seyed Ali Momeni

Journal Article

Meter-scale variation within a single transect demands attention to taxon accumulation curves in riverine microbiome

Journal Article

Comparative analysis of impact of human occupancy on indoor microbiomes

Journal Article

Antibiotics-mediated intestinal microbiome perturbation aggravates tacrolimus-induced glucose disorders

Yuqiu Han, Xiangyang Jiang, Qi Ling, Li Wu, Pin Wu, Ruiqi Tang, Xiaowei Xu, Meifang Yang, Lijiang Zhang, Weiwei Zhu, Baohong Wang, Lanjuan Li

Journal Article

Emerging Trends for Microbiome Analysis: From Single-Cell Functional Imaging to Microbiome Big Data

Jian Xu, Bo Ma, Xiaoquan Su, Shi Huang, Xin Xu, Xuedong Zhou, Wei Huang, Rob Knight

Journal Article

Coupling of the chemical niche and microbiome in the rhizosphere: implications from watermelon grafting

Yang SONG, Chen ZHU, Waseem RAZA, Dongsheng WANG, Qiwei HUANG, Shiwei GUO, Ning LING, Qirong SHEN

Journal Article

Alterations in the Gut Microbiome in Liver Recipients with Post-transplant Diabetes Mellitus

Qi Ling,Yuqiu Han,Yue Ma,Xiaosen Wang,Zheng Zhu,Jingyu Wang,Jiaying Cao,Lin Xiaohan,Jun Wang,Baohong Wang,

Journal Article

Intestinal Epithelial Axin1 Deficiency Protects Against Colitis via Altered Gut Microbiota

Shari Garrett,Yongguo Zhang,Yinglin Xia,Jun Sun,

Journal Article

Changes in bulk soil affect the disease-suppressive rhizosphere microbiome against Fusarium wilt disease

Lin FU, Wu XIONG, Francisco DINI-ANDREOTE, Beibei WANG, Chengyuan TAO, Yunze RUAN, Zongzhuan SHEN, Rong LI, Qirong SHEN

Journal Article

The Phragmites Root-Inhabiting Microbiome: A Critical Review on Its Composition and Environmental

Donglin Wang, Yaohui Bai, Jiuhui Qu

Journal Article

Microbiome Engineering: A Promising Approach to Improve Coral Health

Jie Li, Qingsong Yang, Junde Dong, Michael Sweet, Ying Zhang, Cong Liu, Yanying Zhang, Xiaoyu Tang, Wenqian Zhang, Si Zhang

Journal Article

Temporal Dynamics and Performance Association of the Tetrasphaera-Enriched Microbiome for Enhanced

Hui Wang, Yubo Wang, Guoqing Zhang, Ze Zhao, Feng Ju

Journal Article